Sequence
atgc intronic sequence ATGC exonic sequenceGATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAGgtactaacacttttattcttcaatcaatcaatacacgctttacttgcttattcacttttccactttcggttcgattaaaatttagaatttaaaccacccaaaaataattgtaaatataatttgaaccgtgtgcatatattatag
Basic information
species | Glycine max |
transcript | GLYMA19G40560.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40560.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv07s0005g01710.t01 (Vitis vinifera), 5'ss of exon 2
GATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAGgtactaacacttttattcttcaatcaatcaatacacgctttacttgcttattcacttttccactttcggttcgattaaaatttagaatttaaaccacccaaaaataattgtaaatataatttgaaccgtgtgcatatattatag--------------------------------------------
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GATTCGCCTTCATGACAAAGAGCGAGGTTGATCATCTGGAAGATGGGTACAGATGGAGAAAGTACGGCCAAAAAGCTGTGAAAAACAGCCCCTTTCCTAGgtattg----------tactca--cacttgactcatctttttgtttggtattt-ttatggagcgtttggattgagagaaatgaaaag---aaaatgctcaaaaatggtctcactttc---ttcaactatgttttcttctcatttctcttccttctctcttgctaattttctcatttttgtggatttag
upper sequence: GLYMA19G40560.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S25_173V6.1 (Physcomitrella patens), 5'ss of exon 4
GATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAGgtactaacacttttattcttcaatcaatcaatacacgctttacttgcttattcacttttccactttcggttcgattaaaat--ttagaatttaaaccacccaaaaataattgtaaatataatttgaaccgtgtgcatatattatag
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TATATGCCATTGAAACTCGCACGGATGTTGATATAATGGACGATGGCTTTAAGTGGCGCAAGTACGGCCAGAAAGCTGTCAAAAACAGCCCTTATCCCAGgtac-atcatgtcgatacccttctta-tcatgaca--gtaagatcgaatatgcctcatgtcgggacgggacagattgaaatcatttggatttggatgcggcag-------------------------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|15337380|gb|BI498036.1|BI498036EST: AGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAG GAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAACGCGTGGA
genomic: AGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAGgtactaacac ... tatattatagGAGCTACTATCGTTGCACCAGTGTTTCATGTAATGTGAAGAAACGCGTGGA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGGAGAAAGTACGGTCAAAAAGCTGTGAAAAACAGCCCCTTTCCCAGgtactaacacttttattcttcaatcaatcaatacacgctttacttgcttattcacttttccactttcggttcgattaaaatttagaatttaaaccacccaaaaataattgtaaatataatttgaaccgtgtgcatatattatag
- - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG